Table 2. The difference between the coefficient of variation for the early and late periods for each OTU.

OTU	Taxonomy (level)		Early	Late	P-value
27	Bacteroidales (order)	-2.48	3.416	0.612	3.6E-07*
10	Bacteroidales (order)	-2.46	1.246	0.226	1.1E-04*
11	Bacteroidales (order)	-1.63	0.753	0.243	6.3E-05*
20	Turicibacter (genus)	-1.59	2.632	0.877	6.6E-06*
15	Barnesiella (genus)	-1.23	0.737	0.315	9.5E-05*
13	Porphyromonadaceae (family)	-1.18	0.956	0.421	1.2E-04*
1	Porphyromonadaceae (family)	-0.98	0.517	0.263	8.3E-05*
6	Porphyromonadaceae (family)	-0.93	0.519	0.273	1.1E-05*
2	Bacteroides (genus)	-0.79	0.700	0.405	4.5E-03*
28	Firmicutes (phylum)	-0.77	1.335	0.781	6.3E-02
16	Bacteroidetes (phylum)	-0.76	0.539	0.319	6.7E-05*
4	Porphyromonadaceae (family)	-0.68	0.397	0.247	9.9E-05*
30	Clostridiales (order)	-0.61	1.055	0.689	2.5E-03*
17	Clostridiales (order)	-0.60	1.716	1.136	1.6E-02*
24	Clostridiales (order)	-0.51	1.716	1.209	1.6E-02*
35	Clostridiales (order)	-0.49	0.772	0.549	2.0E-04*
7	Porphyromonadaceae (family)	-0.49	0.536	0.382	1.6E-04*
14	Porphyromonadaceae (family)	-0.47	0.555	0.401	1.4E-05*
8	Porphyromonadaceae (family)	-0.42	0.553	0.415	1.2E-04*
22	Blautia (genus)	-0.36	1.156	0.898	1.1E-02*
23	Lactobacillus (genus)	-0.31	1.487	1.197	1.0E-01
9	Lactobacillus (genus)	-0.31	1.575	1.269	4.4E-04*
3	Alistipes (genus)	-0.28	0.849	0.697	2.1E-01
37	Clostridiales (order)	-0.27	1.350	1.116	1.0E-01
18	Clostridiales (order)	-0.23	0.891	0.758	2.1E-02*
21	Clostridiales (order)	-0.22	0.798	0.687	4.3E-02
26	Ruminococcaceae (family)	-0.21	0.895	0.773	3.1E-01
44	Clostridiales (order)	-0.08	1.324	1.249	4.7E-01
12	Lactobacillus (genus)	0.02	0.972	0.985	7.1E-01
29	Oscillibacter (genus)	0.14	0.946	1.042	8.9E-01
25	Clostridiales (order)	0.17	0.915	1.030	6.9E-01
5	Porphyromonadaceae (family)	0.36	0.505	0.647	2.9E-01
19	Clostridiales (order)	1.67	1.447	4.606	NA

Shaded cells represent OTUs that were classified as belonging to the Firmicutes and the non-shaded cells represent those belonging to the Bacteroidetes. Significance was assessed by using a paired T-test for each OTU and correcting for multiple comparisons using an experiment-wise error rate of 0.05.³⁴NA, because OTU19 was only observed in one animal among the late time points, it was not possible to perform the test. The numbers presented are for M005.